This software is Open Source. almaBTE is a pipeline for detecting mis-assemblies in metagenomic assemblies.
Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform.
An automated data conversion tool for connecting population genetics and genomics programs
The OMA (“Orthologous MAtrix””) project is a method and database for the inference of orthologs among complete genomes.”